X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 298.0
Details PEG4000, sodium acetate, glycerol, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 115.49 α = 90
b = 126.94 β = 90
c = 183.62 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 107
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 2000-02-05
Diffraction Radiation
Monochromator Protocol
-- single wavelength
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MAX II BEAMLINE I711 -- MAX II I711

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.93 19.94 99.1 0.038 -- -- 7.0 200850 200177 0.0 0.0 11.3
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.93 1.96 100.0 0.125 -- 18.0 -- --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
SIR 1.93 19.94 -- 0.0 -- 200173 10079 99.1 -- -- 0.198 0.213 random
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.93 2.02 24973 1295 23678 0.202 0.231 0.006 99.6
X Ray Diffraction 2.02 2.12 25041 1256 23785 0.196 0.226 0.006 99.8
X Ray Diffraction 2.12 2.26 25061 1266 23795 0.189 0.214 0.006 99.9
X Ray Diffraction 2.26 2.43 25107 1288 23819 0.196 0.215 0.006 99.9
X Ray Diffraction 2.43 2.67 25198 1301 23897 0.202 0.219 0.006 99.9
X Ray Diffraction 2.67 3.06 25236 1245 23991 0.199 0.224 0.006 99.8
X Ray Diffraction 3.06 3.85 25184 1249 23935 0.196 0.204 0.006 99.2
X Ray Diffraction 3.85 19.94 24373 1179 23194 0.202 0.198 0.006 93.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model restrained
Mean Isotropic B 18.93
Anisotropic B[1][1] 2.21
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.84
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.36
RMS Deviations
Key Refinement Restraint Deviation
x_scangle_it 2.81
x_scbond_it 2.01
x_mcangle_it 1.34
x_mcbond_it 0.92
x_torsion_impr_deg 1.05
x_torsion_deg 22.6
x_angle_deg 1.2
x_bond_d 0.006
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2
Luzzati Sigma A (Observed) 0.06
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.22
Luzzati Sigma A (R-Free Set) 0.11
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 16130
Nucleic Acid Atoms 0
Heterogen Atoms 60
Solvent Atoms 1479

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SOLVE Structure Solution
CNS 1.1 Structure Refinement
Software
Software Name Purpose
Crystallography & NMR System version: 1.1 refinement